Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ATF1

Cell type

Cell type Class
Muscle
Cell type
DTC1
NA
NA

Attributes by original data submitter

Sample

source_name
Cell line
cell type
Derived from malignant pleural effusion of a patient with a chest wall CCS tumor
chip antibody
ATF1 C (LS-C351857, LS Bio)
treatment
Transfected with siRNA targeting EWSR1-ATF1 fusion transcript
cell line
DTC1 (CVCL_0J31)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross-linked with formaldehyde, flash-frozen and processed for ChIP using Protein G beads. ChIP DNA was purified with AMPure XP beads. ChIP DNA libraries were prepared using the Illumina TruSeq ChIP library preparation kit (Illumina cat. no. IP-202-1012 or IP-202-1024) according to the manufacturer's instructions and 200-500 bp fragments selected using AMPureXP beads.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
31962270
Reads aligned (%)
98.5
Duplicates removed (%)
27.2
Number of peaks
9445 (qval < 1E-05)

hg19

Number of total reads
31962270
Reads aligned (%)
97.5
Duplicates removed (%)
28.7
Number of peaks
9331 (qval < 1E-05)

Base call quality data from DBCLS SRA